TB-Profiler result

Run: ERR2229206

Summary

Run ID: ERR2229206

Sample name:

Date: 31-03-2023 16:48:31

Number of reads: 1132178

Percentage reads mapped: 99.43

Strain: lineage4.8

Drug-resistance: Sensitive


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491229 c.450delT frameshift_variant 0.17
mshA 576108 p.Ala254Gly missense_variant 0.22
mshA 576113 p.Arg256Gly missense_variant 0.25
mshA 576349 c.1002G>T synonymous_variant 0.14
mshA 576456 p.Val370Gly missense_variant 0.17
mshA 576483 p.Val379Gly missense_variant 0.29
rpoB 761654 p.Glu616Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775785 p.Glu899Gly missense_variant 0.13
mmpL5 777191 c.1290C>A synonymous_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781899 p.Arg114Ser missense_variant 0.14
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304960 p.Arg677Leu missense_variant 0.12
Rv1258c 1407033 p.Val103Ala missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475150 n.1493C>A non_coding_transcript_exon_variant 0.12
rpsA 1834492 c.951C>A synonymous_variant 0.13
rpsA 1834499 p.Leu320Met missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167865 c.2748G>C synonymous_variant 0.12
PPE35 2167868 c.2745A>C synonymous_variant 0.12
PPE35 2167965 p.Ala883Gly missense_variant 0.15
PPE35 2167967 c.2646A>C synonymous_variant 0.15
PPE35 2168215 p.Thr800Ala missense_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169602 c.1011C>A synonymous_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.33
PPE35 2170053 p.Thr187Ser missense_variant 0.33
PPE35 2170147 p.Ser156Ala missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519128 c.1014G>C synonymous_variant 0.17
kasA 2519131 c.1017G>C synonymous_variant 0.15
kasA 2519143 c.1029G>C synonymous_variant 0.17
folC 2746433 p.Gly389Asp missense_variant 0.18
folC 2746636 c.963C>A synonymous_variant 0.25
pepQ 2859651 c.768G>T synonymous_variant 0.13
pepQ 2859969 c.450C>A synonymous_variant 0.12
thyA 3074150 p.His108Asn missense_variant 0.12
ald 3087895 c.1080_1081delGG frameshift_variant 0.17
fbiD 3339208 p.Ser31Pro missense_variant 0.12
fbiD 3339745 p.Ala210Ser missense_variant 0.18
fbiB 3641892 p.Leu120Met missense_variant 0.15
fbiB 3642548 c.1014C>A synonymous_variant 0.18
fbiB 3642597 p.Asp355Tyr missense_variant 0.15
alr 3841612 c.-193_-192insC upstream_gene_variant 0.15
embC 4240484 p.Ala208Ser missense_variant 0.12
embC 4240496 p.Leu212Met missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244184 p.Ser318Leu missense_variant 0.13
embA 4244280 p.Gly350Cys missense_variant 0.2
embA 4244313 p.Val361Leu missense_variant 0.2
embA 4244799 p.Val523Leu missense_variant 0.17
embA 4245523 c.2294delG frameshift_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.45
embB 4246548 p.Pro12Gln missense_variant 0.45
embB 4246555 c.42G>C synonymous_variant 0.56
embB 4246556 p.Ala15Pro missense_variant 0.56
embB 4246563 p.Leu17Trp missense_variant 0.29
embB 4246567 c.54_55insT frameshift_variant 0.43
embB 4247028 p.Leu172Arg missense_variant 0.38
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408445 c.-243G>A upstream_gene_variant 0.2
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0